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--- affine_registration [03.05.2017 - 10:29] – bschmid
+++ affine_registration [04.05.2017 - 05:37] (current) – bschmid
@@ Line 1: / Line 1: @@
 ====== Affine Registration ======
-.. {{:affine_registration.jpg?nolink|}}
+{{ :affine_registration.jpg?nolink| }}
+=== Parameters: ===
+  * **initial transformation:**\\ 12 numbers specifying the initial transformation before optimization. The first 3 parameters specify the angles around the z-, the rotated x- and the double-rotated z-axis, parameters 4-6 specify the translation along the x-, y- and z-axis, parameters 7-9 specify the scale along the x-, y- and z-axis, the remaining parameters 10-15 specify the shearing.
+  * **tolerance:**\\ The lower the value for tolerance, the longer the optimization will take, resulting in an improved result.
+  * **coarse level:**\\ Optimization is performed in a multi-resolution approach. A coarse level of 3 means that the images are resampled 3 times (by a factor of 2), so the image size is 1/8th of the original image in each dimension, for the first optimization round.
+  * **fine level:**\\ The final optimization is performed on this level. A value of 1 means that the final optimization is performed on half the original resolution.
+  * **Template:**\\ The reference image to which the model image is aligned.
+  * **Model:**\\ The image that is going to be transformed to match the template.
+  * **out-of-bounds value**: \\ Should be set to the estimated background value in the images.
+  * **bounding box:**\\ 6 numbers specifying the offset (x, y and z) and the extent (w, h and d) of an optional bounding box. If set, optimization will only consider this region (in the template image).
+  * **Rotation:**
+  * **Translation:**
+  * **Scaling:**
+  * **Shearing:** \\ Only selected parameters are optimized.
+  * **Presets:** \\ Some presets for convenience. Selecting "Affine" will select all check boxes above, "Rigid" will select only rotation and translation parameters, etc.